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Commit 848d0846 authored by Wei Chengliang's avatar Wei Chengliang
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update add_CTI.c << add_CTI3.c

parent 1351dda9
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ObservationSim/Instrument/Chip/libCTI/src/add_CTI1.c → ObservationSim/Instrument/Chip/libCTI/src/add_CTI.c
View file @ 848d0846
......@@ -7,10 +7,8 @@
float poidev(float x, int *idum);
void creattraps(int *seed,int ntrap,int ny,int nmax,float c,float beta,float **sp);
void addCTI(int *a0,int ny,int noverscan,int nsp,float beta,float w, float c,float *t, float ***ntrap, int *acti, int release_seed);
//int read_fits_2D(const char *argv,float *galaxy,int imagesize);
//int write_fits_2D(const char *argv,float **stars,int *dim);
void addCTI(int *a0,int ny,int noverscan,int nsp,float beta,float w, float c,float *t, float ***ntrap, int *acti, int release_seed,float *randv);
float ran1(int *idum);
void CTI_simul(int **image, int nx, int ny, int noverscan, int nsp, float *rho_trap, float *t, float beta, float w, float c, int nmax, int *trap_seeds, int release_seed,int **imagecti){
int ntotal;
printf("image parameters: nx=%i ny=%i noverscan=%i\n",nx,ny,noverscan);
......@@ -23,219 +21,221 @@ void CTI_simul(int **image, int nx, int ny, int noverscan, int nsp, float *rho_t
printf("release_seed = %i\n",release_seed);
printf("begin CTI simulation\n");
float ***ntrap;
float **sp;
float tmp;
int ntrap_tmp;
float tmp,*randv;
int ntrap_tmp,nrandv=100000;
int *a0,*acti,dim[2];
int i,j,k,l;
int i,j,k,l,iseed=-1;
ntotal=ny+noverscan;
ntrap = f3tensor(0,nsp,0,ny,0,nmax+1);
sp = matrix(0,ny,0,nmax+1);
ntrap = f3tensor(0,nsp-1,0,ny,0,nmax+1);
a0=ivector(0,ny);
acti=ivector(0,ntotal);
randv=vector(0,nrandv);
for(i=0;i<nrandv;i++)randv[i]=ran1(&iseed);
for(k=0;k<nx;k++){
printf("column k=%i/%i\r",k,nx);
for(l=0;l<nsp;l++){
tmp = rho_trap[l]*ny;
ntrap_tmp = poidev(tmp,&trap_seeds[l]);
creattraps(&trap_seeds[l],ntrap_tmp,ny,nmax,c,beta,ntrap[l]);
/*for(i=0;i<ny;i++){
for(j=0;j<=nmax+1;j++){///!! j<=nmax+1 LGL
ntrap[l][i][j] = sp[i][j];
}
}*/
creattraps(&trap_seeds[l],ntrap_tmp,ny,nmax,c,beta,ntrap[l]);
}
//printf("ntrap0 %f,%f,%f,%f\n",ntrap[0][0][0],ntrap[0][1000][0],ntrap[0][0][1],ntrap[0][1000][1]);
//printf("ntrap1 %f,%f,%f,%f\n",ntrap[1][0][0],ntrap[1][1000][0],ntrap[1][0][1],ntrap[1][1000][1]);
//printf("ntrap2 %f,%f,%f,%f\n",ntrap[2][0][0],ntrap[2][1000][0],ntrap[2][0][1],ntrap[2][1000][1]);
for(i=0;i<ny;i++){
a0[i]=image[k][i];
//printf("image[k][i] %i\n",image[k][i]);
}
for(i=0;i<ntotal;i++)acti[i]=0;
//printf("trap_seed_before %i,%i,%i\n",trap_seeds[0],trap_seeds[1],trap_seeds[2]);
addCTI(a0,ny,noverscan,nsp,beta,w,c,t,ntrap,acti,release_seed);
//printf("trap_seed_after %i,%i,%i\n",trap_seeds[0],trap_seeds[1],trap_seeds[2]);
//printf("acti %i,%i,%i\n",acti[0],acti[1],acti[2]);
for(i=0;i<ny;i++){a0[i]=image[k][i];}
addCTI(a0,ny,noverscan,nsp,beta,w,c,t,ntrap,acti,release_seed,randv);
for(i=0;i<ntotal;i++){
imagecti[k][i]=acti[i];
/*if (acti[i]>acti_max){
acti_max = acti[i];
}*/
}
}
printf("\nCTI simulation finished!\n");
free_ivector(a0,0,ny);
free_ivector(acti,0,ntotal);
free_f3tensor(ntrap,0,nsp,0,ny,0,nmax+1);
free_matrix(sp,0,ny,0,nmax+1);
free_f3tensor(ntrap,0,nsp-1,0,ny,0,nmax+1);
free_vector(randv,0,nrandv);
return;
}
void addCTI(int *a0,int ny,int noverscan, int nsp, float beta,float w, float c,float *t, float ***ntrap, int *acti, int release_seed)
void addCTI(int *a0,int ny,int noverscan, int nsp, float beta,float w, float c,float *t, float ***ntrap, int *acti, int release_seed,float *randv)
{
float ran1(int *idum);
float *f,*tmpntrap;
float height,wre;
int *flow,**traped,flowt,ntraptot,ntraped,topoftrap,nrelease;
int ntotal,i,j,k,nmove,isum,ntmp,isp,*tmptraped;
int ntotal,i,j,k,nmove,isum,ntmp,isp,*tmptraped,ncumran;
wre=1/w;
ntotal=ny+noverscan;
f=vector(0,nsp);
traped = imatrix(0,nsp,0,ntotal);
f=vector(0,nsp-1);
traped = imatrix(0,nsp-1,0,ntotal);
flow=ivector(0,ntotal);
for(i=0;i<nsp;i++){
f[i] = 1-exp(-1/t[i]);
}
for(i=0;i<ntotal;i++)flow[i]=0;
for(i=0;i<nsp;i++){
for(j=0;j<ntotal;j++){
traped[i][j] = 0;
}
}
for(i=ny;i<ntotal;i++)flow[i]=0;
for(j=0;j<ntotal;j++){traped[0][j]=traped[1][j]=traped[2][j]=0;}
//initialize
for(i=0;i<ny;i++){
flow[i]=a0[i];
for(j=0;j<nsp;j++){
ntraptot = ntrap[j][i][0];
//for(j=0;j<nsp;j++){
height=flow[i]*wre;
//sp0
ntraptot = ntrap[0][i][0];
if(ntraptot>0){
ntraped=0;
tmpntrap=ntrap[j][i];/// LGL
tmpntrap=ntrap[0][i];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
if(flow[i]<ntraped)ntraped=flow[i];
flow[i]-=ntraped; // LGL
traped[j][i]=ntraped;
flow[i]-=ntraped;
traped[0][i]=ntraped;
}
//sp1;
ntraptot = ntrap[1][i][0];
if(ntraptot>0){
ntraped=0;
tmpntrap=ntrap[1][i];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
if(flow[i]<ntraped)ntraped=flow[i];
flow[i]-=ntraped;
traped[1][i]=ntraped;
}
//sp2;
ntraptot = ntrap[2][i][0];
if(ntraptot>0){
ntraped=0;
tmpntrap=ntrap[2][i];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
if(flow[i]<ntraped)ntraped=flow[i];
flow[i]-=ntraped;
traped[2][i]=ntraped;
}
}
}
// add CTI effects
for(i=0;i<ntotal;i++){
acti[i] = flow[0];
nmove=ny;
if(i>noverscan)nmove=ntotal-i;
ncumran=randv[i]*10000;
if(i>noverscan)nmove=ntotal-i;
for(j=0;j<nmove;j++){
flow[j]=flow[j+1];
height=flow[j]*wre;
//for(isp=0;isp<nsp;isp++){
isp=0;
ntraptot=ntrap[isp][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[isp][j];
tmptraped=traped[isp];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
if(ran1(&release_seed)<f[isp]){
flow[j]++;
tmptraped[j]--;
}
}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
}
if(nsp==1)continue;
isp=1;
ntraptot=ntrap[isp][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[isp][j];
tmptraped=traped[isp];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
if(ran1(&release_seed)<f[isp]){
flow[j]++;
tmptraped[j]--;
}
}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
//sp0
ntraptot=ntrap[0][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[0][j];
tmptraped=traped[0];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
ncumran++;
if(randv[ncumran]<f[0]){
flow[j]++;
tmptraped[j]--;
}
}
if(nsp==2)continue;
isp=2;
ntraptot=ntrap[isp][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[isp][j];
tmptraped=traped[isp];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
if(ran1(&release_seed)<f[isp]){
flow[j]++;
tmptraped[j]--;
}
}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
}
//sp1
ntraptot=ntrap[1][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[1][j];
tmptraped=traped[1];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
ncumran++;
if(randv[ncumran]<f[1]){
flow[j]++;
tmptraped[j]--;
}
}
if(nsp==3)continue;
isp=3;
ntraptot=ntrap[isp][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[isp][j];
tmptraped=traped[isp];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
if(ran1(&release_seed)<f[isp]){
flow[j]++;
tmptraped[j]--;
}
}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
}
//sp2
ntraptot=ntrap[2][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[2][j];
tmptraped=traped[2];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
ncumran++;
if(randv[ncumran]<f[2]){
flow[j]++;
tmptraped[j]--;
}
}
if(nsp==4)continue;
//}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
}
//if(nsp==3)continue;
/*isp=3;
ntraptot=ntrap[isp][j][0];
if(ntraptot>0){
ntraped=0;
//height=flow[j]*wre;
tmpntrap=ntrap[isp][j];
tmptraped=traped[isp];
while(tmpntrap[ntraped+1]<=height){ntraped++;}
topoftrap=tmptraped[j]-ntraped;
if(topoftrap==0){} //do nothing
else if (topoftrap>0){ // release
for(k=0;k<topoftrap;k++){
if(ran1(&release_seed)<f[isp]){
flow[j]++;
tmptraped[j]--;
}
}
}
else{ //trap
ntmp = -topoftrap;
if(flow[j]<ntmp)ntmp=flow[j];
flow[j]-=ntmp;
tmptraped[j] += ntmp;
}
}*/
}
}
free_ivector(flow,0,ntotal);
free_vector(f,0,nsp-1);
free_imatrix(traped,0,nsp-1,0,ntotal);
return;
}
void save_trap_map(int *trap_seeds, int nsp, int nx, int ny, int nmax, float *rho_trap, float beta, float c, char *filename){
......@@ -280,34 +280,38 @@ void save_trap_map(int *trap_seeds, int nsp, int nx, int ny, int nmax, float *rh
float t[3] = {0.74,7.7,37};
float rho_trap[3] = {0.6,1.6,1.4};
char fname1[300];
int dim[2];
int dim[2],i,j;
int trap_seeds[3] = {1,100,1000};
int release_seed = 10000;
clock_t start, end;
nimg=nx*ny;
image=imatrix(0,nx,0,ny);
imagecti=matrix(0,nx,0,ntotal);
image1=vector(0,nimg);
strcpy(fname1,"inputdata/image.fits");
read_fits_2D(fname1,image1,nimg);kct=0;
for (int j=0; j<ny; j++){for(int i=0;i<nx;i++){
for (j=0;j<ny;j++){for(i=0;i<nx;i++){
image[i][j]=image1[kct];
kct++;
}}
free_vector(image1,0,nimg);
start = clock();
imagecti=matrix(0,nx,0,ntotal);
CTI_simul(image, nx, ny, noverscan, nsp, rho_trap, t, beta, w, c, nmax, trap_seeds, release_seed, imagecti);
end = clock();
float time;
time = (end-start)/CLOCKS_PER_SEC;
printf("running time %f",time);
printf("running time %f\n",time);
// output final image
strcpy(fname1,"output/image_CTI.fits");
dim[0]=nx;dim[1]=ntotal;
write_fits_2D(fname1,imagecti,dim);
free_vector(image1,0,nimg);
free_matrix(imagecti,0,nx,0,ntotal);
free_matrix(imagecti,0,nx,0,ntotal);
free_imatrix(image,0,nx,0,ny);
return 0;
}*/
setup.py
View file @ 848d0846
......@@ -41,7 +41,7 @@ df_module = [CTypes('ObservationSim.Instrument.Chip.libBF.libmoduleBF',
include_dirs=['ObservationSim/Instrument/Chip/libBF/', '/usr/include']
)]
cti_module = [CTypes('ObservationSim.Instrument.Chip.libCTI.libmoduleCTI',
['ObservationSim/Instrument/Chip/libCTI/src/add_CTI1.c', 'ObservationSim/Instrument/Chip/libCTI/src/nrutil.c', 'ObservationSim/Instrument/Chip/libCTI/src/ran1.c', 'ObservationSim/Instrument/Chip/libCTI/src/ran2.c', 'ObservationSim/Instrument/Chip/libCTI/src/poidev.c', 'ObservationSim/Instrument/Chip/libCTI/src/gammln.c', 'ObservationSim/Instrument/Chip/libCTI/src/gasdev.c', 'ObservationSim/Instrument/Chip/libCTI/src/sort.c', 'ObservationSim/Instrument/Chip/libCTI/src/creattraps.c'],
['ObservationSim/Instrument/Chip/libCTI/src/add_CTI.c', 'ObservationSim/Instrument/Chip/libCTI/src/nrutil.c', 'ObservationSim/Instrument/Chip/libCTI/src/ran1.c', 'ObservationSim/Instrument/Chip/libCTI/src/ran2.c', 'ObservationSim/Instrument/Chip/libCTI/src/poidev.c', 'ObservationSim/Instrument/Chip/libCTI/src/gammln.c', 'ObservationSim/Instrument/Chip/libCTI/src/gasdev.c', 'ObservationSim/Instrument/Chip/libCTI/src/sort.c', 'ObservationSim/Instrument/Chip/libCTI/src/creattraps.c'],
include_dirs=['ObservationSim/Instrument/Chip/libCTI/src/', '/usr/include']
)]
......
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